9JL5 | pdb_00009jl5

CYP105A1 R84A complexed with mevastatin (cryogenic data collection)

PDB DOI: https://doi.org/10.2210/pdb9JL5/pdb

Classification: OXIDOREDUCTASE
Organism(s): Streptomyces griseolus
Expression System: Escherichia coli
Mutation(s): Yes

Deposited: 2024-09-18 Released: 2025-09-24
Deposition Author(s): Mikami, B., Takita, T., Sakaki, T., Yasuda, K., Yasukawa, K., Yoneda, S., Yamagata, M.
Funding Organization(s): Japan Society for the Promotion of Science (JSPS)

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 1.80 Å
R-Value Free:
0.219 (Depositor), 0.219 (DCC)
R-Value Work:
0.177 (Depositor), 0.177 (DCC)
R-Value Observed:
0.179 (Depositor)

Starting Model: experimental
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wwPDB Validation 3D Report Full Report

Ligand Structure Quality Assessment

This is version 1.0 of the entry. See complete history.

Literature

Room temperature X-ray data collection enabled the structural determination of statin-bound CYP105A1

Takita, T., Yoneda, S., Yasuda, K., Mikami, B., Sakaki, T., Yasukawa, K.

(2025) Acta Crystallogr D Biol Crystallogr

Macromolecule Content

Total Structure Weight: 46.07 kDa
Atom Count: 3,622
Modeled Residue Count: 407
Deposited Residue Count: 412
Unique protein chains: 1

Macromolecules

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(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Vitamin D3 dihydroxylase	A	412	Streptomyces griseolus	Mutation(s): 2 Gene Names: cyp105A1, suaC EC: 1.14.15 (PDB Primary Data), 1.14.15.22 (UniProt)
UniProt
Find proteins for P18326 (Streptomyces griseolus) Explore P18326 Go to UniProtKB: P18326
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	P18326
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 4 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
HEM (Subject of Investigation/LOI) Query on HEM Download Ideal Coordinates CCD File SDF format, chain B [auth A] MOL2 format, chain B [auth A] mmCIF format, chain B [auth A]	B [auth A]	PROTOPORPHYRIN IX CONTAINING FE C₃₄ H₃₂ Fe N₄ O₄ KABFMIBPWCXCRK-RGGAHWMASA-L		Interactions Focus chain B [auth A] Interactions & Density Focus chain B [auth A]
TRS Query on TRS Download Ideal Coordinates CCD File SDF format, chain E [auth A] MOL2 format, chain E [auth A] mmCIF format, chain E [auth A]	E [auth A]	2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL C₄ H₁₂ N O₃ LENZDBCJOHFCAS-UHFFFAOYSA-O		Interactions Focus chain E [auth A] Interactions & Density Focus chain E [auth A]
MPD Query on MPD Download Ideal Coordinates CCD File SDF format, chain C [auth A] SDF format, chain D [auth A] MOL2 format, chain C [auth A] MOL2 format, chain D [auth A] mmCIF format, chain C [auth A] mmCIF format, chain D [auth A]	C [auth A], D [auth A]	(4S)-2-METHYL-2,4-PENTANEDIOL C₆ H₁₄ O₂ SVTBMSDMJJWYQN-YFKPBYRVSA-N		Interactions Focus chain C [auth A] Focus chain D [auth A] Interactions & Density Focus chain C [auth A] Focus chain D [auth A]
PEG Query on PEG Download Ideal Coordinates CCD File SDF format, chain F [auth A] MOL2 format, chain F [auth A] mmCIF format, chain F [auth A]	F [auth A]	DI(HYDROXYETHYL)ETHER C₄ H₁₀ O₃ MTHSVFCYNBDYFN-UHFFFAOYSA-N		Interactions Focus chain F [auth A] Interactions & Density Focus chain F [auth A]